13. Income Taxes

The tax effects of temporary differences that gave rise to significant portions of the deferred tax assets and liabilities were as follows:

December 31, 

(in thousands)

    

2024

    

2023

Deferred tax assets:

 

  

 

  

Net operating loss carryforwards

$

94,923

$

76,362

Research and development credits

 

50,842

 

45,320

Collaboration and license agreement

 

3,422

 

3,748

Capitalized research and development

59,803

65,170

Share-based compensation

 

5,863

 

6,773

Accrued expenses and other

 

1,404

 

1,430

Operating lease liabilities

7,560

7,803

Depreciation and amortization

461

Total gross deferred tax assets before valuation allowance

 

224,278

 

206,606

Valuation allowance

 

(219,833)

 

(200,774)

Net deferred tax assets

4,445

5,832

Deferred tax liabilities:

Right of use assets - operating leases

(4,445)

(5,496)

Depreciation and amortization

(336)

Total deferred tax liabilities

 

(4,445)

 

(5,832)

Net deferred taxes

$

$

In assessing the need for a valuation allowance, management must determine that there will be sufficient taxable income to allow for the realization of deferred tax assets. Based upon the historical and anticipated future losses, management has determined the deferred tax assets do not meet the more-likely-than-not threshold for realizability. Accordingly, a full valuation allowance has been recorded against the Company’s net deferred tax assets as of December 31, 2024 and 2023. The valuation allowance increased by $19.1 million and $20.9 million during the years ended December 31, 2024 and 2023, respectively.

A reconciliation of the federal income tax rate to the Company’s effective tax rate is as follows:

Year ended

December 31, 

    

2024

2023

Federal tax benefit at statutory rate

 

21.0

%

21.0

%

State tax, net of federal benefit

 

2.5

 

5.2

Change in state tax rates

-

(14.0)

Permanent differences

 

(0.8)

 

2.8

Equity compensation

(1.9)

(4.0)

Research and development and orphan tax credits

 

8.6

 

9.5

Change in valuation allowance

 

(29.4)

 

(20.5)

 

%  

%

The following table summarizes carryforwards of federal, state and local net operating losses, or NOL, and research and development and orphan drug tax credits:

December 31, 

(in thousands)

    

2024

    

2023

Federal

$

339,055

$

265,458

State

 

339,051

 

265,454

Local

 

218,844

 

214,518

Research tax credits

 

50,842

 

45,320

For federal income tax purposes, $0.3 million of NOL carryforwards expire in 2037. The remaining federal NOL carryforwards were generated subsequent to January 1, 2018, and therefore, are able to be carried forward indefinitely.

For state income tax purposes, NOL carryforwards begin expiring in 2037, and expire through 2044.

For local income tax purposes related to the city of Philadelphia, NOL carryforwards begin expiring in 2024, and expire through 2044. NOL carryforwards generated prior to 2022 expire after three years, whereas NOL carryforwards generated in 2022 and after expire after 20 years.

As of December 31, 2024, the Company also had $11.4 million of federal research and development and $39.4 million orphan drug tax credit carryforwards that will begin to expire in 2038 and 2040, respectively, unless previously utilized.

The NOL and tax credit carryforwards are subject to review and possible adjustment by the Internal Revenue Service and state tax authorities. NOL and tax credit carryforwards may become subject to an annual limitation in the event of certain cumulative changes in the ownership interest of significant stockholders over a three-year period in excess of 50 percent, as defined under Sections 382 and 383 of the Internal Revenue Code, respectively, as well as similar state provisions. This could limit the amount of tax attributes that can be utilized annually to offset future taxable income or tax liabilities. The amount of the annual limitation is determined based on the value of the Company immediately prior to the ownership change. Subsequent ownership changes may further affect the limitation in future years. The Company has not done an analysis to determine whether or not ownership changes have occurred since inception. Certain state NOL carryforwards may also be limited, including Pennsylvania, which limits NOL utilization as a percentage of apportioned taxable income.

The Company will recognize interest and penalties related to uncertain tax positions as a component of interest income, net. As of December 31, 2024, the Company had no accrued interest or penalties related to uncertain tax positions and no amounts have been recognized in the Company’s statement of operations. Tax years from 2021 and after remain subject to examination by the taxing jurisdictions. The NOL and tax credit carryforwards remain subject to review until utilized.

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About Income Taxes Disclosures

The income tax disclosure reveals how much a company actually pays in taxes versus what the statutory rate would predict. Analysts focus on the effective tax rate (ETR) reconciliation, which breaks down every item driving the gap between the 21% federal rate and the company's reported ETR — including R&D credits, foreign rate differentials, and state taxes. Deferred tax assets (DTAs) and their valuation allowances signal management's confidence in future profitability: a rising allowance suggests the company doubts it can use accumulated tax benefits. Uncertain tax benefit (UTB) reserves quantify exposure to IRS challenges on aggressive positions.

Key signals to watch: sudden ETR drops without clear operational reasons, large increases in valuation allowances, growing UTB balances, and significant unremitted foreign earnings. Post-TCJA, pay attention to GILTI and BEAT provisions that affect multinational tax structures. Compare the cash taxes paid (from the cash flow statement) against the income tax provision to gauge earnings quality.